popari.pl.all_embeddings

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popari.pl.all_embeddings#

popari.pl.all_embeddings(trained_model, embedding_key='X', column_names=None, level=0, **spatial_kwargs)[source]#

Plot all learned metagenes in-situ across all replicates.

Each replicate’s metagenes are contained in a separate plot.

Parameters:

  • trained_model (Popari) – the trained Popari model.

  • embedding_key (str) – the key in the .obsm dataframe for the cell/spot embeddings.

  • column_names (str | None) – a list of the suffixes for each latent feature. If None, it is assumed that these suffixes are just the indices of the latent features.

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